Research Output 1968 2019

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2019

A Bacterial Effector Mimics a Host HSP90 Client to Undermine Immunity

Lopez, V. A., Park, B. C., Nowak, D., Sreelatha, A., Zembek, P., Fernandez, J., Servage, K. A., Gradowski, M., Hennig, J., Tomchick, D. R., Pawłowski, K., Krzymowska, M. & Tagliabracci, V. S., Sep 19 2019, In : Cell. 179, 1, p. 205-218.e21

Research output: Contribution to journalArticle

Protein Kinases
Immunity
Phosphorylation
Pathogens
Plant Immunity
1 Citation (Scopus)

A composition-dependent molecular clutch between T cell signaling condensates and actin

Ditlev, J. A., Vega, A. R., Köster, D. V., Su, X., Tani, T., Lakoduk, A. M., Vale, R. D., Mayor, S., Jaqaman, K. & Rosen, M. K., Jul 3 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
Cell signaling
T-cells
Clutches
Actins
T-Lymphocytes

Agonist Selectivity and Ion Permeation in the α3β4 Ganglionic Nicotinic Receptor

Gharpure, A., Teng, J., Zhuang, Y., Noviello, C. M., Walsh, R. M., Cabuco, R., Howard, R. J., Zaveri, N. T., Lindahl, E. & Hibbs, R. E., Nov 6 2019, In : Neuron. 104, 3, p. 501-511.e6

Research output: Contribution to journalArticle

Nicotinic Receptors
Ions
Autonomic Ganglia
Peripheral Nervous System
Molecular Dynamics Simulation
1 Citation (Scopus)

An improved yeast surface display platform for the screening of nanobody immune libraries

Uchański, T., Zögg, T., Yin, J., Yuan, D., Wohlkönig, A., Fischer, B., Rosenbaum, D. M., Kobilka, B. K., Pardon, E. & Steyaert, J., Dec 1 2019, In : Scientific Reports. 9, 1, 382.

Research output: Contribution to journalArticle

Single-Domain Antibodies
Libraries
Yeasts
Acyl Carrier Protein
Antigens
2 Citations (Scopus)

Assessing predictions on fitness effects of missense variants in calmodulin

Zhang, J., Kinch, L. N., Cong, Q., Katsonis, P., Lichtarge, O., Savojardo, C., Babbi, G., Martelli, P. L., Capriotti, E., Casadio, R., Garg, A., Pal, D., Weile, J., Sun, S., Verby, M., Roth, F. P. & Grishin, N. V., Jan 1 2019, (Accepted/In press) In : Human Mutation.

Research output: Contribution to journalArticle

Calmodulin
Calcium
Eukaryotic Cells
Yeasts
Genome

A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism

Schober, A. F., Mathis, A. D., Ingle, C., Park, J. O., Chen, L., Rabinowitz, J. D., Junier, I., Rivoire, O. & Reynolds, K. A., Jun 11 2019, In : Cell Reports. 27, 11, p. 3359-3370.e7

Research output: Contribution to journalArticle

Open Access
Folic Acid
Metabolism
Tetrahydrofolate Dehydrogenase
Thymidylate Synthase
Enzymes
4 Citations (Scopus)

Bacterial pseudokinase catalyzes protein polyglutamylation to inhibit the SidE-family ubiquitin ligases

Black, M. H., Osinski, A., Gradowski, M., Servage, K. A., Pawłowski, K., Tomchick, D. R. & Tagliabracci, V. S., May 24 2019, In : Science (New York, N.Y.). 364, 6442, p. 787-792 6 p.

Research output: Contribution to journalArticle

Ligases
Ubiquitin
Protein Kinases
Legionella
Calmodulin
4 Citations (Scopus)

CASP13 target classification into tertiary structure prediction categories

Kinch, L. N., Kryshtafovych, A., Monastyrskyy, B. & Grishin, N. V., Jan 1 2019, In : Proteins: Structure, Function and Bioinformatics.

Research output: Contribution to journalArticle

Servers
Protein Databases
Cluster Analysis
Proteins
Topology
10 Citations (Scopus)

Cerebellar ataxia disease-associated Snx14 promotes lipid droplet growth at ER-droplet contacts

Datta, S., Liu, Y., Hariri, H., Bowerman, J. & Henne, W. M., Apr 1 2019, In : The Journal of cell biology. 218, 4, p. 1335-1351 17 p.

Research output: Contribution to journalArticle

Open Access
Cerebellar Diseases
Cerebellar Ataxia
Endoplasmic Reticulum
Growth
Fatty Acids

Chemical and structural analysis of a photoactive vertebrate cryptochrome from pigeon

Zoltowski, B. D., Chelliah, Y., Wickramaratne, A., Jarocha, L., Karki, N., Xu, W., Mouritsen, H., Hore, P. J., Hibbs, R. E., Green, C. B. & Takahashi, J. S., Sep 24 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 39, p. 19449-19457 9 p.

Research output: Contribution to journalArticle

Open Access
Cryptochromes
Columbidae
Vertebrates
Light
Photochemistry
5 Citations (Scopus)

Classification of the human phox homology (PX) domains based on their phosphoinositide binding specificities

Chandra, M., Chin, Y. K. Y., Mas, C., Feathers, J. R., Paul, B., Datta, S., Chen, K. E., Jia, X., Yang, Z., Norwood, S. J., Mohanty, B., Bugarcic, A., Teasdale, R. D., Henne, W. M., Mobli, M. & Collins, B. M., Dec 1 2019, In : Nature communications. 10, 1, 1528.

Research output: Contribution to journalArticle

Open Access
homology
Phosphatidylinositols
Phospholipids
lipids
Interferometry
4 Citations (Scopus)

Combined blockade of activating ERBB2 mutations and ER results in synthetic lethality of ERþ/HER2 mutant breast cancer

Croessmann, S., Formisano, L., Kinch, L. N., Gonzalez-Ericsson, P. I., Sudhan, D. R., Nagy, R. J., Mathew, A., Bernicker, E. H., Cristofanilli, M., He, J., Cutler, R. E., Lalani, A. S., Miller, V. A., Lanman, R. B., Grishin, N. V. & Arteaga, C. L., Jan 1 2019, In : Clinical Cancer Research. 25, 1, p. 277-289 13 p.

Research output: Contribution to journalArticle

Estradiol Congeners
Estrogen Receptors
Breast Neoplasms
Mutation
MCF-7 Cells

Cryo-EM analyses reveal the common mechanism and diversification in the activation of RET by different ligands

Li, J., Shang, G., Chen, Y. J., Brautigam, C. A., Liou, J., Zhang, X. & Bai, X. C., Sep 2019, In : eLife. 8, e47650.

Research output: Contribution to journalArticle

Open Access
Chemical activation
Ligands
Glial Cell Line-Derived Neurotrophic Factor
Phosphorylation
Dimerization

Cryo-EM structures of the human cation-chloride cotransporter KCC1

Liu, S., Chang, S., Han, B., Xu, L., Zhang, M., Zhao, C., Yang, W., Wang, F., Li, J., Delpire, E., Ye, S., Bai, X. C. & Guo, J., Oct 25 2019, In : Science. 366, 6464, p. 505-508 4 p.

Research output: Contribution to journalArticle

Ion Transport
Cations
Chlorides
Aminobutyrates
Cryoelectron Microscopy
7 Citations (Scopus)

Direct observation of individual tubulin dimers binding to growing microtubules

Mickolajczyk, K. J., Geyer, E. A., Kim, T., Rice, L. M. & Hancock, W. O., Apr 9 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 15, p. 7314-7322 9 p.

Research output: Contribution to journalArticle

Tubulin
Microtubules
Observation
Cell Division
Microscopy
2 Citations (Scopus)

Divergent kinase regulates membrane ultrastructure of the Toxoplasma parasitophorous vacuole

Beraki, T., Hu, X., Broncel, M., Young, J. C., O'Shaughnessy, W. J., Borek, D., Treeck, M. & Reese, M., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 13, p. 6361-6370 10 p.

Research output: Contribution to journalArticle

Open Access
Toxoplasma
Vacuoles
Phosphotransferases
Membranes
Parasites

Drosophila Snazarus Regulates a Lipid Droplet Population at Plasma Membrane-Droplet Contacts in Adipocytes

Ugrankar, R., Bowerman, J., Hariri, H., Chandra, M., Chen, K., Bossanyi, M. F., Datta, S., Rogers, S., Eckert, K. M., Dias do Vale, G., Victoria, A., Fresquez, J., McDonald, J. G., Jean, S., Collins, B. M. & Henne, W. M., Sep 9 2019, In : Developmental Cell. 50, 5, p. 557-572.e5

Research output: Contribution to journalArticle

Cell membranes
Adipocytes
Contacts (fluid mechanics)
Drosophila
Cell Membrane

ECOD: Identification of distant homology among multidomain and transmembrane domain proteins

Schaeffer, R. D., Kinch, L., Medvedev, K. E., Pei, J., Cheng, H. & Grishin, N. V., Jun 21 2019, In : BMC Molecular and Cell Biology. 20, 1, 18.

Research output: Contribution to journalArticle

Open Access
Leucine-tRNA Ligase
ATP-Binding Cassette Transporters
Dimerization
Anniversaries and Special Events
Leucine
1 Citation (Scopus)

Enhanced Sample Handling for Analytical Ultracentrifugation with 3D-Printed Centerpieces

To, S. C., Brautigam, C. A., Chaturvedi, S. K., Bollard, M. T., Krynitsky, J., Kakareka, J. W., Pohida, T. J., Zhao, H. & Schuck, P., May 7 2019, In : Analytical chemistry. 91, 9, p. 5866-5873 8 p.

Research output: Contribution to journalArticle

Sedimentation
Printing
Epoxy Resins
Aberrations
Durability

FAP57/WDR65 targets assembly of a subset of inner arm dyneins and connects to regulatory hubs in cilia

Lin, J., Le, T. V., Augspurger, K., Tritschler, D., Bower, R., Fu, G., Perrone, C., O'Toole, E. T., VanderWaal Mills, K., Dymek, E., Smith, E., Nicastro, D. & Porter, M. E., Oct 1 2019, In : Molecular biology of the cell. 30, 21, p. 2659-2680 22 p.

Research output: Contribution to journalArticle

Open Access
Dyneins
Cilia
Electron Microscope Tomography
Insertional Mutagenesis
Protein Subunits

FISIK: Framework for the Inference of In Situ Interaction Kinetics from Single-Molecule Imaging Data

de Oliveira, L. R. & Jaqaman, K., Jan 1 2019, (Accepted/In press) In : Biophysical Journal.

Research output: Contribution to journalArticle

Theoretical Models
Biological Models
Single Molecule Imaging
Information Systems
Calibration
1 Citation (Scopus)

Functional Assessment of Lipoyltransferase-1 Deficiency in Cells, Mice, and Humans

Ni, M., Solmonson, A., Pan, C., Yang, C., Li, D., Notzon, A., Cai, L., Guevara, G., Zacharias, L. G., Faubert, B., Vu, H. S., Jiang, L., Ko, B., Morales, N. M., Pei, J., Dias do Vale, G., Rakheja, D., Grishin, N. V., McDonald, J. G., Gotway, G. K. & 3 others, McNutt, M. C., Pascual, J. M. & DeBerardinis, R. J., Apr 30 2019, In : Cell Reports. 27, 5, p. 1376-1386.e6

Research output: Contribution to journalArticle

Open Access
Functional assessment
Inborn Errors Metabolism
Metabolomics
Genomics
Metabolism

Functional divergence caused by mutations in an energetic hotspot in ERK2

Taylor, C. A., Cormier, K. W., Keenan, S. E., Earnest, S., Stippec, S., Wichaidit, C., Juang, Y. C., Wang, J., Shvartsman, S. Y., Goldsmith, E. J. & Cobb, M. H., Jul 30 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 31, p. 15514-15523 10 p.

Research output: Contribution to journalArticle

Open Access
Mitogen-Activated Protein Kinase 1
Mutation
Hot Temperature
Dual-Specificity Phosphatases
Neoplasms
4 Citations (Scopus)

Genomes of skipper butterflies reveal extensive convergence of wing patterns

Li, W., Cong, Q., Shen, J., Zhang, J., Hallwachs, W., Janzen, D. H. & Grishin, N. V., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 13, p. 6232-6237 6 p.

Research output: Contribution to journalArticle

Open Access
Butterflies
Genome
Biodiversity
Phylogeny
Genomics
2 Citations (Scopus)

Genomes reveal drastic and recurrent phenotypic divergence in firetip skipper butterflies (Hesperiidae: Pyrrhopyginae)

Zhang, J., Cong, Q., Shen, J., Brockmann, E. & Grishin, N. V., May 29 2019, In : Proceedings of the Royal Society B: Biological Sciences. 286, 1903, 20190609.

Research output: Contribution to journalArticle

Hesperiidae
Butterflies
butterfly
genome
Genes

Genomic analysis of the tribe Emesidini (Lepidoptera: Riodinidae)

Zhang, J., Shen, J., Cong, Q. & Grishin, N. V., Sep 12 2019, In : Zootaxa. 4668, 4, p. 475-488 14 p.

Research output: Contribution to journalArticle

Open Access
Apodemia
Riodinidae
genomics
Lepidoptera
Papilio

Gypsy moth genome provides insights into flight capability and virus–host interactions

Zhang, J., Cong, Q., Rex, E. A., Hallwachs, W., Janzen, D. H., Grishin, N. V. & Gammon, D. B., Jan 29 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 5, p. 1669-1678 10 p.

Research output: Contribution to journalArticle

Moths
Genome
Gene Ontology
Population
Virus Diseases

Heteromeric neuronal nicotinic acetylcholine receptors with mutant B subunits acquire sensitivity to A7-selective positive allosteric modulatorss

Stokes, C., Garai, S., Kulkarni, A. R., Cantwell, L. N., Noviello, C. M., Hibbs, R. E., Horenstein, N. A., Abboud, K. A., Thakur, G. A. & Papke, R. L., Jan 1 2019, In : Journal of Pharmacology and Experimental Therapeutics. 370, 2, p. 252-268 17 p.

Research output: Contribution to journalArticle

Open Access
Nicotinic Receptors
Mutation
Leucine
Methionine
Sulfonamides

Heterotrophic carbon metabolism and energy acquisition in Candidatus Thioglobus singularis strain PS1, a member of the SUP05 clade of marine Gammaproteobacteria

Spietz, R. L., Lundeen, R. A., Zhao, X., Nicastro, D., Ingalls, A. E. & Morris, R. M., Jan 1 2019, In : Environmental Microbiology.

Research output: Contribution to journalArticle

Gammaproteobacteria
Heterotrophic Processes
Calvin cycle
gamma-Proteobacteria
Carbon Cycle

High-Order Epistasis in Catalytic Power of Dihydrofolate Reductase Gives Rise to a Rugged Fitness Landscape in the Presence of Trimethoprim Selection

Tamer, Y. T., Gaszek, I. K., Abdizadeh, H., Batur, T. A., Reynolds, K. A., Atilgan, A. R., Atilgan, C. & Toprak, E., Jul 1 2019, In : Molecular biology and evolution. 36, 7, p. 1533-1550 18 p.

Research output: Contribution to journalArticle

Open Access
dihydrofolate reductase
epistasis
Tetrahydrofolate Dehydrogenase
Trimethoprim
trimethoprim

High-resolution cryo-EM structures of the E. Coli hemolysin ClyA oligomers

Peng, W., de Souza Santos, M., Li, Y., Tomchick, D. R. & Orth, K. A., May 1 2019, In : PloS one. 14, 5, e0213423.

Research output: Contribution to journalArticle

Open Access
hemolysins
Protein Subunits
protein subunits
Oligomers
Porins

How Often Do Protein Genes Navigate Valleys of Low Fitness?

Nelson, E. D. & Grishin, N. V., Apr 1 2019, In : Genes. 10, 4, 283.

Research output: Contribution to journalArticle

Open Access
Genes
Proteins
Population
Amino Acid Motifs
Population Density

Identification of residues critical for topology inversion of the transmembrane protein TM4SF20 through regulated alternative translocation

Wang, J., Kinch, L. N., Denard, B., Lee, C. E., Gharehdaghi, E. E., Grishin, N. V. & Ye, J., Jan 1 2019, In : Journal of Biological Chemistry. 294, 15, p. 6054-6061 8 p.

Research output: Contribution to journalArticle

Topology
Proteins
Mutagenesis
Ceramides
Membranes

Importin-9 wraps around the H2A-H2B core to act as nuclear importer and histone chaperone

Padavannil, A., Sarkar, P., Kim, S. J., Cagatay, T., Jiou, J., Brautigam, C. A., Tomchick, D. R., Sali, A., D'Arcy, S. & Chook, Y. M., Mar 11 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
Histone Chaperones
Karyopherins
Nucleosomes
Histones
DNA

Improved strategy for isoleucine 1H/13C methyl labeling in Pichia pastoris

Ali, R., Clark, L. D., Zahm, J. A., Lemoff, A., Ramesh, K., Rosenbaum, D. M. & Rosen, M. K., Jan 1 2019, (Accepted/In press) In : Journal of Biomolecular NMR.

Research output: Contribution to journalArticle

Open Access
Pichia
Isoleucine
Labeling
Proteins
Costs and Cost Analysis

Inhibition of Marburg Virus RNA Synthesis by a Synthetic Anti-VP35 Antibody

Amatya, P., Wagner, N., Chen, G., Luthra, P., Shi, L., Borek, D., Pavlenco, A., Rohrs, H., Basler, C. F., Sidhu, S. S., Gross, M. L. & Leung, D. W., Jan 1 2019, In : ACS Infectious Diseases.

Research output: Contribution to journalArticle

Marburgvirus
Anti-Idiotypic Antibodies
RNA
Viral RNA
Viral Proteins
5 Citations (Scopus)

Ionotropic Receptors Specify the Morphogenesis of Phasic Sensors Controlling Rapid Thermal Preference in Drosophila

Budelli, G., Ni, L., Berciu, C., van Giesen, L., Knecht, Z. A., Chang, E. C., Kaminski, B., Silbering, A. F., Samuel, A., Klein, M., Benton, R., Nicastro, D. & Garrity, P. A., Feb 20 2019, In : Neuron. 101, 4, p. 738-747.e3

Research output: Contribution to journalArticle

Morphogenesis
Drosophila
Hot Temperature
Thermosensing
Temperature
2 Citations (Scopus)

Kinesin-dependent transport of keratin filaments: A unified mechanism for intermediate filament transport

Robert, A., Tian, P., Adam, S. A., Kittisopikul, M., Jaqaman, K., Goldman, R. D. & Gelfand, V. I., Jan 1 2019, In : FASEB Journal. 33, 1, p. 388-399 12 p.

Research output: Contribution to journalArticle

Kinesin
Intermediate Filaments
Keratins
Clustered Regularly Interspaced Short Palindromic Repeats
Vimentin

Kinetochore-associated Stu2 promotes chromosome biorientation in vivo

Miller, M. P., Evans, R. K., Zelter, A., Geyer, E. A., MacCoss, M. J., Rice, L. M., Davis, T. N., Asbury, C. L. & Biggins, S., Oct 1 2019, In : PLoS genetics. 15, 10, p. e1008423

Research output: Contribution to journalArticle

Open Access
Kinetochores
kinetochores
chromosome
Chromosomes
chromosomes
1 Citation (Scopus)

Long-range, through-lattice coupling improves predictions of microtubule catastrophe

Kim, T. & Rice, L. M., Jan 1 2019, In : Molecular biology of the cell. 30, 12, p. 1451-1462 12 p.

Research output: Contribution to journalArticle

Open Access
Microtubules
Tubulin
Guanosine Triphosphate
Biochemistry
Chromosome Segregation
10 Citations (Scopus)

Mdm1 maintains endoplasmic reticulum homeostasis by spatially regulating lipid droplet biogenesis

Hariri, H., Speer, N., Bowerman, J., Rogers, S., Fu, G., Reetz, E., Datta, S., Feathers, J. R., Ugrankar, R., Nicastro, D. & Henne, W. M., Apr 1 2019, In : The Journal of cell biology. 218, 4, p. 1319-1334 16 p.

Research output: Contribution to journalArticle

Open Access
Endoplasmic Reticulum
Homeostasis
Fatty Acids
Vacuoles
Yeasts
4 Citations (Scopus)

Membrane bridging by Munc13-1 is crucial for neurotransmitter release

Quade, B., Camacho, M., Zhao, X., Orlando, M., Trimbuch, T., Xu, J., Li, W., Nicastro, D., Rosenmund, C. & Rizo-Rey, J., Feb 28 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
Synaptic Vesicles
Neurotransmitter Agents
Synaptic Membranes
Cell membranes
Membranes
11 Citations (Scopus)

Molecular Discrimination between Two Conformations of Sphingomyelin in Plasma Membranes

Endapally, S., Frias, D., Grzemska, M., Gay, A., Tomchick, D. R. & Radhakrishnan, A., Feb 21 2019, In : Cell. 176, 5, p. 1040-1053.e17

Research output: Contribution to journalArticle

Sphingomyelins
Cell membranes
Conformations
Cholesterol
Cell Membrane

Morphological Plasticity in a Sulfur-Oxidizing Marine Bacterium from the SUP05 Clade Enhances Dark Carbon Fixation

Shah, V., Zhao, X., Lundeen, R. A., Ingalls, A. E., Nicastro, D. & Morris, R. M., May 7 2019, In : mBio. 10, 3

Research output: Contribution to journalArticle

Open Access
Carbon Cycle
Sulfur
Bacteria
Oxygen
Cell Size
2 Citations (Scopus)

Multiple factors maintain assembled trans-SNARE complexes in the presence of NSF and αSNAP

Prinslow, E. A., Stepien, K. P., Pan, Y. Z., Xu, J. & Rizo-Rey, J., Jan 18 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
SNARE Proteins
Synaptotagmin I
Synaptic Vesicles
Synaptic Membranes
Cell membranes

Munc18-1 is crucial to overcome the inhibition of synaptic vesicle fusion by αSNAP

Stepien, K. P., Prinslow, E. A. & Rizo, J., Dec 1 2019, In : Nature communications. 10, 1, 4326.

Research output: Contribution to journalArticle

Open Access
SNAP
Syntaxin 1
SNARE Proteins
Synaptic Vesicles
Liposomes

NMR and crystallographic structural studies of the extremely stable monomeric variant of human cystatin C with single amino acid substitution

Maszota-Zieleniak, M., Jurczak, P., Orlikowska, M., Zhukov, I., Borek, D., Otwinowski, Z., Skowron, P., Pietralik, Z., Kozak, M., Szymańska, A. & Rodziewicz-Motowidło, S., Jan 1 2019, In : FEBS Journal.

Research output: Contribution to journalArticle

Cystatin C
Amino Acid Substitution
Substitution reactions
Nuclear magnetic resonance
Amino Acids

Organization of Chromatin by Intrinsic and Regulated Phase Separation

Gibson, B. A., Doolittle, L. K., Schneider, M. W. G., Jensen, L. E., Gamarra, N., Henry, L., Gerlich, D. W., Redding, S. & Rosen, M. K., Oct 3 2019, In : Cell. 179, 2, p. 470-484.e21

Research output: Contribution to journalArticle

Phase separation
Chromatin
Histones
Acetylation
Liquids
2 Citations (Scopus)

PACRG and FAP20 form the inner junction of axonemal doublet microtubules and regulate ciliary motility

Dymek, E. E., Lin, J., Fu, G., Porter, M. E., Nicastro, D. & Smith, E. F., Jul 15 2019, In : Molecular biology of the cell. 30, 15, p. 1805-1816 12 p.

Research output: Contribution to journalArticle

Open Access
Microtubules
Dyneins
Electron Microscope Tomography
Beak
Axoneme

Predicting Sequence Features, Function, and Structure of Proteins Using MESSA

Bhat, A. S. & Grishin, N. V., Jan 1 2019, In : Current Protocols in Bioinformatics. 67, 1, e84.

Research output: Contribution to journalArticle

Protein Sequence Analysis
Servers
Proteins
Protein Databases
Gene Ontology